R/seuratFunctions.R
seuratNormalizeData.Rd
seuratNormalizeData Wrapper for NormalizeData() function from seurat library Normalizes the sce object according to the input parameters
seuratNormalizeData( inSCE, useAssay, normAssayName = "seuratNormData", normalizationMethod = "LogNormalize", scaleFactor = 10000, verbose = TRUE )
inSCE | (sce) object to normalize |
---|---|
useAssay | Assay containing raw counts to use for normalization. |
normAssayName | Name of new assay containing normalized data. Default
|
normalizationMethod | selected normalization method. Default
|
scaleFactor | numeric value that represents the scaling factor. Default
|
verbose | Logical value indicating if informative messages should
be displayed. Default is |
Normalized SingleCellExperiment
object
data(scExample, package = "singleCellTK") if (FALSE) { sce <- seuratNormalizeData(sce, useAssay = "counts") }